MmuINT0077074 @ mm9
Intron Retention
Gene
ENSMUSG00000020721 | Helz
Description
helicase with zinc finger domain [Source:MGI Symbol;Acc:MGI:1925705]
Coordinates
chr11:107487849-107488768:+
Coord C1 exon
chr11:107487849-107488028
Coord A exon
chr11:107488029-107488663
Coord C2 exon
chr11:107488664-107488768
Length
635 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATTTGCACCATTTATTTCAGCAG
3' ss Score
4.83
Exon sequences
Seq C1 exon
ACAGTGGGACGAGCAGTTGGATCCTCGGCTAAATGCAAAGCAGAAAGAAGCTGTTCTGGCCATCACCACTCCACTCTCCATCCAGCTGCCGCCTGTCCTCATCATTGGACCCTACGGGACGGGCAAAACCTTCACTCTGGCTCAGGCGGCCAAGCACATACTGCAGCAGCAGGAGACCAG
Seq A exon
GTGAGCCGAGGGAGGCATGCCCTGTCTCTTCACCAGGCAGAGCCTCTCTCCTTGCTTTAGAGAGAGAATGAGGGCAGTGAGACAGTTTTCATCCTCTTCCTAGCCTCAAAGCGATGAAGTTTGTATTCTCTTAGAACATGCTGTTGTAAAAGTTGGCAGGCAGTGTAAACTGGGCATAACGGCTTGTGCCTTTAATCCCAGCACTTGGGAGGCAGAGCCAGCTGGATCTCTGAGCTCAAGGCTAGCCTGGTCTATAGTGGGCAGCCAGGGCTACACAGAGAAACCCTGACTCAAAAACACCCCCTTCCCCCCCACCCCCCACTCCCCAAATAACAAGAACAAGTTGACAGTGTAGACACGGTAGTTTGACATAGCTGTTATACATTATGGGTATATTAAAAGTCTAAGGGCTGGGTTTAAAAATCCTTACTATGGACTGTGGATAGATTTAAAGATTATTTGGGGGAGCTACTCTTTAGCTTAGAGTAACATAACTCCCAAAGGCACCATGGGTCCTGTTGAATGTGAGCGGGGCGCGGGAAATGGACGTGTAAGATGGCCACTGCTCTCTTGGTGTTGAACTGCCTGACTAGCTTCTGTTGTGTCATTCTTTTTATTTGCACCATTTATTTCAG
Seq C2 exon
CAGGATTCTCATTTGCACCCATTCTAATAGTGCTGCTGACCTCTACATAAAGGATTATTTACATCCATATGTAGAAGCAGGCAATCCCCAGGCAAGACCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020721-Helz:NM_198298:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(26.3=83.6)
A:
NA
C2:
PF130861=AAA_11=FE(18.0=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGGGACGAGCAGTTGGAT
R:
GGTCTTGCCTGGGGATTGC
Band lengths:
278-913
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: